GgaINT0047772 @ galGal4
Intron Retention
Gene
ENSGALG00000009362 | ITGA6
Description
integrin alpha-6 precursor [Source:RefSeq peptide;Acc:NP_990620]
Coordinates
chr7:17228088-17228505:-
Coord C1 exon
chr7:17228312-17228505
Coord A exon
chr7:17228177-17228311
Coord C2 exon
chr7:17228088-17228176
Length
135 bp
Sequences
Splice sites
5' ss Seq
CAGGTGAGT
5' ss Score
10.67
3' ss Seq
TTGCAACTTCTTTTCAACAGATA
3' ss Score
8.52
Exon sequences
Seq C1 exon
ATGGCAAGATATTGTGGTTGGAGCCCCGCAATACTTTGATAGAAGTGGAGATATCGGTGGTGCTGTGTACATCTACATTAACCAGCAAGGCAAATGGGAAGGAATAAAACCTATTCGCTTAAATGGGACCGCTGACTCAATGTTTGGTCTCGCAGTTGAAAATGTTGGGGACATTAATCAGGACGGATATCCAG
Seq A exon
GTGAGTGAAAATGACTAACAGGAGAGTGTGCATGATTTTTGTGCTAACGCCACACTTTGAACGGCTGTCTTTATCACAACTGAAAGCTGCAGAAAGAATAAGAATTATTTATGTATTGCAACTTCTTTTCAACAG
Seq C2 exon
ATATTGCAGTAGGGGCTCCATATGATGGTTTTGGCAAAGTATATATATATCATGGATCCAAGAATGGAATAAATACAGAACCAGCACAG
VastDB Features
Vast-tools module Information
Secondary ID
ENSGALG00000009362:ENSGALT00000038606:7
Average complexity
IR
Mappability confidence:
NA
Protein Impact
ORF disruption upon sequence inclusion
No structure available
Features
Disorder rate (Iupred):
C1=0.000 A=NA C2=0.133
Domain overlap (PFAM):
C1:
PF135171=VCBS=FE(87.8=100)
A:
NA
C2:
PF135171=VCBS=PD(4.1=10.0)
Main Inclusion Isoform:
NA
Other Inclusion Isoforms:
NA
Other Skipping Isoforms:
NA
Associated events
Other assemblies
Conservation
Fruitfly
(dm6)
No conservation detected
Primers PCR
Suggestions for RT-PCR validation
F:
GAAGTGGAGATATCGGTGGTGC
R:
CTGTGCTGGTTCTGTATTTATTCCA
Band lengths:
242-377
Functional annotations
There are 0 annotated functions for this event
GENOMIC CONTEXT[edit]
INCLUSION PATTERN[edit]